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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/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' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ), 'gf_id' => 'HOM05D001081', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001081' ), 'data_identifier' => 'HOM05D001081', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001081', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '568', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p13390' => 'bna', 'A03p53190' => 'bna', 'A06p18510' => 'bna', 'A06p28130' => 'bna', 'A06p35020' => 'bna', 'A06p35070' => 'bna', 'Aa31LG11G3510' => 'aar', 'Aa31LG4G17660' => 'aar', 'Aa31LG6G3950' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3719' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1615' => 'aag', 'Actinidia04689' => 'ach', 'Actinidia04725' => 'ach', 'Actinidia06147' => 'ach', 'Actinidia08651' => 'ach', 'Actinidia15449' => 'ach', 'Actinidia17007' => 'ach', 'Actinidia27675' => 'ach', 'Actinidia34223' => 'ach', 'Ah.03g146510' => 'amhyb', 'Ah.05g173160' => 'amhyb', 'Ah.07g205570' => 'amhyb', 'AL5G28980' => 'aly', 'AL6G35690' => 'aly', 'AL6G35700' => 'aly', 'AL6G35710' => 'aly', 'AL7G31700' => 'aly', 'Aqoxy3G00072' => 'aox', 'Aqoxy3G01434' => 'aox', 'Aqoxy4G01594' => 'aox', 'Aqoxy4G01595' => 'aox', 'Aqoxy4G03008' => 'aox', 'Aqoxy5G02855' => 'aox', 'Aqoxy7G00072' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1A6HQL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8V1LLT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EUX55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G37INR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MC3H0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS9NKM' => 'arhy', 'AT3G49250' => 'ath', 'AT4G22000' => 'ath', 'AT5G24275' => 'ath', 'AT5G24280' => 'ath', 'ATR0602G075' => 'atr', 'ATR0602G200' => 'atr', 'ATR0602G220' => 'atr', 'ATR1134G096' => 'atr', 'Atru.chr12.2201' => 'acertr', 'Atru.chr12.2203' => 'acertr', 'Atru.chr12.2212' => 'acertr', 'Atru.chr9.478' => 'acertr', 'AUR62000987' => 'cqu', 'AUR62006087' => 'cqu', 'AUR62013725' => 'cqu', 'AUR62018052' => 'cqu', 'AUR62019406' => 'cqu', 'AUR62019407' => 'cqu', 'AUR62023429' => 'cqu', 'BcaB01g00734' => 'bca', 'BcaB01g02574' => 'bca', 'BcaB02g09581' => 'bca', 'BcaB03g11721' => 'bca', 'BcaC01g02396' => 'bca', 'BcaC07g39396' => 'bca', 'BcaC09g51172' => 'bca', 'BcaNung00816' => 'bca', 'BcaNung01218' => 'bca', 'BcaNung01219' => 'bca', 'BcaNung01800' => 'bca', 'BcaNung01806' => 'bca', 'BcaNung05107' => 'bca', 'BolC1t01570H' => 'bol', 'BolC3t18824H' => 'bol', 'BolC7t44875H' => 'bol', 'BolC7t44880H' => 'bol', 'BolC8t50042H' => 'bol', 'BraA01t01281Z' => 'bra', 'BraA06t24929Z' => 'bra', 'BraA06t26425Z' => 'bra', 'BraA06t26428Z' => 'bra', 'C01p16100' => 'bna', 'C03p65710' => 'bna', 'C07p43490' => 'bna', 'C07p43530' => 'bna', 'C08p24250' => 'bna', 'CAN.G277.1' => 'can', 'CAN.G312.1' => 'can', 'CAN.G39.28' => 'can', 'CAN.G411.51' => 'can', 'CAN.G481.12' => 'can', 'CAN.G481.14' => 'can', 'CAN.G481.9' => 'can', 'CAN.G926.9' => 'can', 'CANSAT21G0069' => 'cansat', 'CANSAT21G1491' => 'cansat', 'CANSAT21G1508' => 'cansat', 'CANSAT21G1825' => 'cansat', 'CANSAT21G1954' => 'cansat', 'CANSAT21G2573' => 'cansat', 'CANSAT56G1265' => 'cansat', 'CARHR158090' => 'chi', 'CARHR181380' => 'chi', 'CARHR189220' => 'chi', 'CARHR189240' => 'chi', 'CARHR189250' => 'chi', 'CARHR214900' => 'chi', 'CARHR214910' => 'chi', 'CARHR218460' => 'chi', 'CARHR228810' => 'chi', 'Carub.0005s1547' => 'cru', 'Carub.0006s2203' => 'cru', 'Carub.0006s2204' => 'cru', 'Carub.0006s2205' => 'cru', 'Carub.0007s1934' => 'cru', 'Ca_09514_v3' => 'car', 'Ca_12791_v3' => 'car', 'Ca_12793_v3' => 'car', 'Ca_16709_v3' => 'car', 'Ca_18157_v3' => 'car', 'Ca_30064_v3' => 'car', 'CBR_g8977' => 'cbr', 'Cc02_g01510' => 'ccan', 'Cc09_g00180' => 'ccan', 'Cc10_g01340' => 'ccan', 'CDE03G0337' => 'cde', 'CDE05G3015' => 'cde', 'CDE10G0237' => 'cde', 'CDE11G0170' => 'cde', 'Cfa016232' => 'cfa', 'Cfa016233' => 'cfa', 'Ciclev10011757m.g' => 'ccl', 'Ciclev10012614m.g' => 'ccl', 'Ciclev10018477m.g' => 'ccl', 'Ciclev10022846m.g' => 'ccl', 'CiPaw.02G041300' => 'cil', 'CiPaw.06G046000' => 'cil', 'CiPaw.06G046100' => 'cil', 'CiPaw.06G046200' => 'cil', 'ClCG00G004120' => 'cla', 'ClCG01G000420' => 'cla', 'ClCG05G008950' => 'cla', 'COL.COLO4_16767' => 'col', 'COL.COLO4_16768' => 'col', 'Cpa.g.sc3.88' => 'cpa', 'Cpa.g.sc3.89' => 'cpa', 'Cpa.g.sc3.91' => 'cpa', 'Cpa.g.sc39.5' => 'cpa', 'Cpa.g.sc99.28' => 'cpa', 'CsaV3_1G033480' => 'csa', 'CsaV3_3G019830' => 'csa', 'CsaV3_3G019840' => 'csa', 'CsaV3_5G000480' => 'csa', 'CSS0017659' => 'camsi', 'CSS0023065' => 'camsi', 'CSS0028486' => 'camsi', 'CSS0030903' => 'camsi', 'CSS0032097' => 'camsi', 'CSS0034162' => 'camsi', 'CSS0034499' => 'camsi', 'CSS0050389' => 'camsi', 'DCAR_003024' => 'dca', 'DCAR_003026' => 'dca', 'DCAR_003027' => 'dca', 'DCAR_008927' => 'dca', 'DCAR_008928' => 'dca', 'DCAR_008929' => 'dca', 'DCAR_008932' => 'dca', 'DCAR_008935' => 'dca', 'DCAR_010599' => 'dca', 'DCAR_013886' => 'dca', 'DCAR_016735' => 'dca', 'DCAR_018284' => 'dca', 'Dinv08524' => 'din', 'Dinv29277' => 'din', 'Dinv31879' => 'din', 'Dinv35338' => 'din', 'Dinv35339' => 'din', 'Duzib068G0185' => 'dzi', 'Duzib068G1165' => 'dzi', 'Duzib084G0071' => 'dzi', 'Duzib205G0300' => 'dzi', 'Duzib205G0894' => 'dzi', 'Duzib205G2059' => 'dzi', 'ECA233G1076' => 'eca', 'ECA233G5228' => 'eca', 'ECA238G0006' => 'eca', 'ECA238G1287' => 'eca', 'EL10Ac1g00254' => 'bvu', 'EL10Ac1g00785' => 'bvu', 'EL10Ac2g04588' => 'bvu', 'EL10Ac3g05278' => 'bvu', 'EL10Ac3g05279' => 'bvu', 'EL10Ac3g05280' => 'bvu', 'EL10Ac3g05556' => 'bvu', 'EL10Ac9g22095' => 'bvu', 'Eucgr.F01156' => 'egr', 'Eucgr.G00091' => 'egr', 'Eucgr.G00092' => 'egr', 'Eucgr.G00110' => 'egr', 'Eucgr.G00111' => 'egr', 'Eucgr.G00143' => 'egr', 'Eucgr.H00020' => 'egr', 'Eucgr.H02781' => 'egr', 'Eucgr.H05016' => 'egr', 'Eucgr.H05019' => 'egr', 'Eucgr.H05027' => 'egr', 'Eucgr.K00385' => 'egr', 'FAN01G0187' => 'fan', 'FAN01G1356' => 'fan', 'FAN01G2325' => 'fan', 'FAN01G2588' => 'fan', 'FAN03G0095' => 'fan', 'FAN03G0412' => 'fan', 'FAN03G1268' => 'fan', 'FAN03G2990' => 'fan', 'FAN03G3021' => 'fan', 'FAN06G0656' => 'fan', 'FAN06G0828' => 'fan', 'FAN06G1778' => 'fan', 'FAN06G3021' => 'fan', 'FAN06G3553' => 'fan', 'FAN06G3917' => 'fan', 'FAN10G0061' => 'fan', 'FAN10G1688' => 'fan', 'FAN10G3364' => 'fan', 'FAN10G3430' => 'fan', 'FAN10G3885' => 'fan', 'FAN10G4108' => 'fan', 'FAN10G4231' => 'fan', 'FvH4_7g16780' => 'fve', 'FvH4_7g31511' => 'fve', 'FvH4_7g31550' => 'fve', 'FvH4_7g31551' => 'fve', 'FvH4_7g31560' => 'fve', 'FvH4_7g32260' => 'fve', 'Glyma.04G235500' => 'gma', 'Glyma.05G143900' => 'gma', 'Glyma.06G129200' => 'gma', 'Glyma.08G100200' => 'gma', 'Glyma.17G128700' => 'gma', 'Glyma.19G256600' => 'gma', 'Gohir.A05G100100' => 'ghi', 'Gohir.A09G033580' => 'ghi', 'Gohir.A11G015200' => 'ghi', 'Gohir.A12G249700' => 'ghi', 'Gohir.D01G098375' => 'ghi', 'Gohir.D01G141951' => 'ghi', 'Gohir.D05G099900' => 'ghi', 'Gohir.D09G034100' => 'ghi', 'Gohir.D11G015300' => 'ghi', 'Gohir.D11G256700' => 'ghi', 'Gohir.D12G250500' => 'ghi', 'Gorai.002G175000' => 'gra', 'Gorai.006G039100' => 'gra', 'Gorai.007G015700' => 'gra', 'Gorai.008G268600' => 'gra', 'Gorai.009G103900' => 'gra', 'Gorai.010G233200' => 'gra', 'Gorai.011G131700' => 'gra', 'GSVIVG01009969001' => 'vvi', 'GSVIVG01038554001' => 'vvi', 'GSVIVG01038555001' => 'vvi', 'HanXRQChr03g0071171' => 'han', 'HanXRQChr04g0100491' => 'han', 'HanXRQChr06g0165641' => 'han', 'HanXRQChr08g0225261' => 'han', 'HanXRQChr08g0225271' => 'han', 'HanXRQChr08g0225281' => 'han', 'HanXRQChr08g0225291' => 'han', 'HanXRQChr08g0225301' => 'han', 'HanXRQChr08g0225321' => 'han', 'HanXRQChr08g0225331' => 'han', 'HanXRQChr08g0225341' => 'han', 'HanXRQChr08g0231511' => 'han', 'HanXRQChr10g0291811' => 'han', 'HanXRQChr14g0429651' => 'han', 'Haze_00208' => 'cav', 'Haze_05836' => 'cav', 'Haze_05841' => 'cav', 'Haze_05842' => 'cav', 'Haze_15669' => 'cav', 'Hma1.2p1_0003F.1_g003770' => 'hma', 'Hma1.2p1_0013F.1_g008960' => 'hma', 'Hma1.2p1_0351F.1_g132830' => 'hma', 'Hma1.2p1_0404F.1_g145340' => 'hma', 'Hma1.2p1_0404F.1_g145350' => 'hma', 'Hma1.2p1_0404F.1_g145360' => 'hma', 'Hma1.2p1_0404F.1_g145380' => 'hma', 'Hma1.2p1_0404F.1_g145390' => 'hma', 'Hma1.2p1_0404F.1_g145400' => 'hma', 'Hma1.2p1_2248F.1_g318020' => 'hma', 'Hma1.2p1_2672F.1_g326680' => 'hma', 'HPP92_001908' => 'vpl', 'HPP92_008968' => 'vpl', 'Hund11659' => 'sun', 'Hund21005' => 'sun', 'Hund21006' => 'sun', 'Hund21007' => 'sun', 'Lalb_Chr08g0240221' => 'lal', 'Lalb_Chr10g0091351' => 'lal', 'Lalb_Chr10g0091361' => 'lal', 'Lalb_Chr10g0100591' => 'lal', 'Lalb_Chr11g0066881' => 'lal', 'Lalb_Chr13g0294051' => 'lal', 'Lalb_Chr20g0120921' => 'lal', 'Lj1C1018T17' => 'lonja', 'Lj1C1020T7' => 'lonja', 'Lj1g0004421' => 'lja', 'Lj1g0014928' => 'lja', 'Lj1g0018421' => 'lja', 'Lj1g0021086' => 'lja', 'Lj1g0024637' => 'lja', 'Lj3A904G78' => 'lonja', 'Lj4g0008522' => 'lja', 'Lj4g0009093' => 'lja', 'Lj4P697T30' => 'lonja', 'Lj5g0017992' => 'lja', 'Lj6g0010658' => 'lja', 'Lsat_1_v5_gn_0_23101' => 'lsa', 'Lsat_1_v5_gn_2_136121' => 'lsa', 'Lsat_1_v5_gn_6_63561' => 'lsa', 'Lsat_1_v5_gn_8_107360' => 'lsa', 'Lsat_1_v5_gn_8_5221' => 'lsa', 'Lsat_1_v5_gn_8_5261' => 'lsa', 'Lsat_1_v5_gn_8_60400' => 'lsa', 'Lsat_1_v5_gn_9_3381' => 'lsa', 'Lsat_1_v5_gn_9_50520' => 'lsa', 'Manes.01G183500' => 'mes', 'Manes.01G245700' => 'mes', 'Manes.10G072000' => 'mes', 'Manes.17G027400' => 'mes', 'Manes.18G126800' => 'mes', 'Mapoly0012s0096' => 'mpo', 'Mapoly0076s0015' => 'mpo', 'Mapoly0111s0028' => 'mpo', 'MBI06_g13415_MAGBIO' => 'mbi', 'MBI07_g23667_MAGBIO' => 'mbi', 'MBI07_g37059_MAGBIO' => 'mbi', 'MD01G1082600' => 'mdo', 'MD01G1218300' => 'mdo', 'MD07G1150900' => 'mdo', 'MD07G1288100' => 'mdo', 'MD07G1288200' => 'mdo', 'MD07G1288300' => 'mdo', 'Medtr1g007950' => 'mtr', 'Medtr1g007990' => 'mtr', 'Medtr1g008050' => 'mtr', 'Medtr3g491560' => 'mtr', 'Medtr7g117665' => 'mtr', 'Medtr8g079498' => 'mtr', 'MELO3C005887.2' => 'cme', 'MELO3C008496.2' => 'cme', 'MELO3C008498.2' => 'cme', 'Migut.F00208' => 'egut', 'Migut.F00209' => 'egut', 'Migut.F00210' => 'egut', 'Migut.F01028' => 'egut', 'Migut.N03179' => 'egut', 'MSTRG.22347' => 'ama', 'MSTRG.25269' => 'ama', 'MSTRG.51' => 'ama', 'MSTRG.8651' => 'ama', 'Nitab4.5_0000015g0280' => 'nta', 'Nitab4.5_0000548g0100' => 'nta', 'Nitab4.5_0000548g0110' => 'nta', 'Nitab4.5_0002544g0090' => 'nta', 'Nitab4.5_0004146g0010' => 'nta', 'Nitab4.5_0004513g0030' => 'nta', 'Nitab4.5_0005166g0030' => 'nta', 'Nitab4.5_0006933g0020' => 'nta', 'Nitab4.5_0006933g0030' => 'nta', 'Nitab4.5_0006933g0040' => 'nta', 'Nitab4.5_0009932g0030' => 'nta', 'Nn1g00259' => 'nnu', 'Nn1g00260' => 'nnu', 'Nn3g16671' => 'nnu', 'Nn6g34886' => 'nnu', 'Oeu040723.1' => 'oeu', 'Oeu041052.4' => 'oeu', 'Oeu041053.1' => 'oeu', 'Os01g0235200' => 'osa', 'Os05g0114600' => 'osa', 'Peaxi162Scf00071g00017' => 'pax', 'Peaxi162Scf00445g01025' => 'pax', 'Peaxi162Scf00618g00337' => 'pax', 'Peaxi162Scf00740g00138' => 'pax', 'Peaxi162Scf00740g00139' => 'pax', 'Peaxi162Scf00740g00140' => 'pax', 'PGR044G2718' => 'pgr', 'PGR083G2221' => 'pgr', 'PGSC0003DMG400009131' => 'stu', 'PGSC0003DMG401028646' => 'stu', 'PGSC0003DMG402028646' => 'stu', 'Phvul.001G061700' => 'pvu', 'Phvul.003G125501' => 'pvu', 'Phvul.006G113900' => 'pvu', 'Phvul.009G052300' => 'pvu', 'Potri.002G172000' => 'ptr', 'Potri.012G015800' => 'ptr', 'Potri.012G016000' => 'ptr', 'Potri.012G016100' => 'ptr', 'Potri.015G012600' => 'ptr', 'Potri.015G012700' => 'ptr', 'Pp3c15_6340' => 'ppa', 'Pp3c22_17800' => 'ppa', 'Pp3c22_17807' => 'ppa', 'Pp3c8_21170' => 'ppa', 'Pp3c8_21182' => 'ppa', 'Prupe.2G190000' => 'ppe', 'Prupe.2G309600' => 'ppe', 'Prupe.2G309700' => 'ppe', 'Prupe.2G309800' => 'ppe', 'Psat3g002360' => 'psa', 'Psat5g076840' => 'psa', 'Psat5g076960' => 'psa', 'Psat6g034720' => 'psa', 'Psat7g080240' => 'psa', 'PSO063G4550' => 'pso', 'PSO135G0284' => 'pso', 'PSO170G6091' => 'pso', 'PSO384G4859' => 'pso', 'PSO541G2503' => 'pso', 'PSO541G4732' => 'pso', 'PSO675G3624' => 'pso', 'PSO781G0289' => 'pso', 'QL09p008772' => 'qlo', 'QL09p008790' => 'qlo', 'QL09p008866' => 'qlo', 'QL09p008909' => 'qlo', 'QL09p008921' => 'qlo', 'QL09p009101' => 'qlo', 'QL09p009112' => 'qlo', 'RcHm_v2.0_Chr1g0359991' => 'rch', 'RcHm_v2.0_Chr1g0380531' => 'rch', 'RcHm_v2.0_Chr1g0380541' => 'rch', 'RcHm_v2.0_Chr1g0380551' => 'rch', 'RcHm_v2.0_Chr1g0381531' => 'rch', 'RcHm_v2.0_Chr2g0148041' => 'rch', 'Rhsim03G0209000' => 'rsi', 'Rhsim03G0209100' => 'rsi', 'Rhsim06G0231600' => 'rsi', 'Rhsim06G0232000' => 'rsi', 'Rhsim09G0205800' => 'rsi', 'Sabra11G0071600' => 'sbr', 'Sabra12G0016000' => 'sbr', 'Sabra12G0016100' => 'sbr', 'Sabra15G0067900' => 'sbr', 'Sabra15G0068100' => 'sbr', 'Sabra18G0120100' => 'sbr', 'SalBow2G1109' => 'sbo', 'SalBow4G1120' => 'sbo', 'SalBow6G0310' => 'sbo', 'Sc13g0009920' => 'sci', 'Sc25g0000900' => 'sci', 'Sed0011102' => 'sed', 'Sed0012235' => 'sed', 'Sed0012325' => 'sed', 'Sed0014310' => 'sed', 'Sed0016547' => 'sed', 'Sed0024875' => 'sed', 'Sed0025154' => 'sed', 'SEGI_00308' => 'sgi', 'SEGI_10612' => 'sgi', 'SEGI_15117' => 'sgi', 'SEGI_15379' => 'sgi', 'SEGI_17438' => 'sgi', 'SEGI_22535' => 'sgi', 'SEGI_24096' => 'sgi', 'SEGI_32055' => 'sgi', 'SEGI_32374' => 'sgi', 'SEGI_37251' => 'sgi', 'SGA_v2.0_scaffold192G40538' => 'sas', 'SGA_v2.0_scaffold192G40544' => 'sas', 'SGA_v2.0_scaffold19G08564' => 'sas', 'SGA_v2.0_scaffold25G11207' => 'sas', 'SGA_v2.0_scaffold44G16806' => 'sas', 'SGA_v2.0_scaffold55G19771' => 'sas', 'SGA_v2.0_scaffold9G04846' => 'sas', 'SHI02369' => 'shi', 'SMO147G0358' => 'smo', 'SMO213G0001' => 'smo', 'SMO273G0039' => 'smo', 'SMO356G0374' => 'smo', 'Solyc03g071790.1' => 'sly', 'Solyc03g071800.2' => 'sly', 'Solyc03g071810.1' => 'sly', 'Solyc03g071820.2' => 'sly', 'Solyc03g071830.1' => 'sly', 'Solyc03g083120.3' => 'sly', 'Solyc03g083130.3' => 'sly', 'Solyc03g083160.3' => 'sly', 'Solyc03g083170.3' => 'sly', 'Solyc03g083190.3' => 'sly', 'Solyc03g083200.4' => 'sly', 'Solyc03g083210.3' => 'sly', 'Solyc03g150133.1' => 'sly', 'Solyc06g051990.4' => 'sly', 'Solyc11g032140.1' => 'sly', 'Solyc11g032160.1' => 'sly', 'Solyc12g042700.3' => 'sly', 'Solyc12g042720.3' => 'sly', 'Sopen03g019380' => 'spe', 'Sopen03g019390' => 'spe', 'Sopen03g019410' => 'spe', 'Sopen03g022620' => 'spe', 'Sopen03g022630' => 'spe', 'Sopen03g022640' => 'spe', 'Sopen03g022900' => 'spe', 'Sopen03g022910' => 'spe', 'Sopen03g022930' => 'spe', 'Sopen03g022940' => 'spe', 'Sopen03g022950' => 'spe', 'Sopen03g022960' => 'spe', 'Sopen06g018050' => 'spe', 'Sopen11g015170' => 'spe', 'Sopen12g021840' => 'spe', 'Sopen12g021900' => 'spe', 'Sp2g23080' => 'spa', 'Sp3g24400' => 'spa', 'Sp5g12830' => 'spa', 'Sp7g06460' => 'spa', 'Sp7g20190' => 'spa', 'TAR375G0280' => 'tar', 'TAR375G0704' => 'tar', 'TAR381G1700' => 'tar', 'TAR625G0271' => 'tar', 'THA.LOC104798899' => 'tha', 'THA.LOC104798900' => 'tha', 'THA.LOC104798901' => 'tha', 'THA.LOC104823111' => 'tha', 'Thecc.03G196700' => 'tca', 'Thecc.03G196800' => 'tca', 'Thecc.03G199300' => 'tca', 'Thecc.03G199400' => 'tca', 'Thecc.03G199500' => 'tca', 'Thhalv10003512m.g' => 'esa', 'Thhalv10003513m.g' => 'esa', 'Thhalv10010429m.g' => 'esa', 'Thhalv10026223m.g' => 'esa', 'TPR.G12082' => 'tpr', 'TPR.G19386' => 'tpr', 'TPR.G3709' => 'tpr', 'TPR.G4753' => 'tpr', 'TPR.G9557' => 'tpr', 'TWI14G0383' => 'twi', 'TWI23G0785' => 'twi', 'TWI39G0245' => 'twi', 'TWI39G0445' => 'twi', 'TWI74G0183' => 'twi', 'unitig_32.g11232' => 'ugi', 'unitig_747.g21743' => 'ugi', 'vmacro06385' => 'vma', 'vmacro06386' => 'vma', 'vmacro07565' => 'vma', 'vmacro10123' => 'vma', 'vmacro12512' => 'vma', 'vmacro22637' => 'vma', 'vmacro22638' => 'vma', 'VMungo0251G0734' => 'vmu', 'VMungo0540G0270' => 'vmu', 'VMungo1309G1923' => 'vmu', 'Zm00001eb119030' => 'zma', 'Zm00001eb182960' => 'zma', 'Zm00001eb203830' => 'zma', 'Zm00001eb217050' => 'zma', 'Zm00001eb266390' => 'zma', 'Zm00001eb355650' => 'zma' ) $gf_id = 'HOM05D001081' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001081' ) $data_identifier = 'HOM05D001081' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 11, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 7, 'bca' => (int) 13, 'bol' => (int) 5, 'bra' => (int) 4, 'can' => (int) 8, 'cansat' => (int) 7, 'chi' => (int) 9, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 4, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 12, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 8, 'egr' => (int) 12, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 6, 'ghi' => (int) 11, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 5, 'hma' => (int) 11, 'vpl' => (int) 2, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 4, 'lja' => (int) 9, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 4, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 3, 'osa' => (int) 2, 'pax' => (int) 6, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 2, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 18, 'spe' => (int) 16, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 3, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb355650' $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